Commits · 33d55c12006e0d154e04cdfea20172197ac87190 · violethaze74 / Artemis

Oct 21, 2010

update · 33d55c12

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14895 ee4ac58c-ac51-4696-9907-e4b3aa274f04

33d55c12

draw alignment blocks to show splits in reads over introns · f95df8c3

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14894 ee4ac58c-ac51-4696-9907-e4b3aa274f04

f95df8c3

log max heap memory used · 59995db5

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14893 ee4ac58c-ac51-4696-9907-e4b3aa274f04

59995db5

Oct 20, 2010

add vcf panel to print · 2172efdc

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14888 ee4ac58c-ac51-4696-9907-e4b3aa274f04

2172efdc

add getVcfPanelArray() · 02ff4f2e

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14887 ee4ac58c-ac51-4696-9907-e4b3aa274f04

02ff4f2e

Oct 19, 2010

add VCF option · 85369f10

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14886 ee4ac58c-ac51-4696-9907-e4b3aa274f04

85369f10

report java 1.6 + is needed · 504cb4b4

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14884 ee4ac58c-ac51-4696-9907-e4b3aa274f04

504cb4b4

fix so that the start of the region requested from tabix is never less than 1 · 06a575de

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14883 ee4ac58c-ac51-4696-9907-e4b3aa274f04

06a575de

Oct 08, 2010

update · 87ed51bf

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14825 ee4ac58c-ac51-4696-9907-e4b3aa274f04

87ed51bf

changes to extend with AbstractGraphPanel · 10021fdb

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14824 ee4ac58c-ac51-4696-9907-e4b3aa274f04

10021fdb

abstract graph panel · e8886f38

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14823 ee4ac58c-ac51-4696-9907-e4b3aa274f04

e8886f38

Oct 05, 2010

fix for duplicate values when new values are added more than once · dfae4fde

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14815 ee4ac58c-ac51-4696-9907-e4b3aa274f04

dfae4fde

Sep 23, 2010

fix typo · dc96afe8

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14790 ee4ac58c-ac51-4696-9907-e4b3aa274f04

dc96afe8

use FeatureContigPredicate to match reads to reference contig · e77a1c9a

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14780 ee4ac58c-ac51-4696-9907-e4b3aa274f04

e77a1c9a

move FeatureContigPredicate class to separate class file · 7c541722

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14776 ee4ac58c-ac51-4696-9907-e4b3aa274f04

7c541722

strip out contig from drop down list · 2d17580f

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14774 ee4ac58c-ac51-4696-9907-e4b3aa274f04

2d17580f

catch errors · 318b83a9

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14772 ee4ac58c-ac51-4696-9907-e4b3aa274f04

318b83a9

fasta index support · 4cc4b990

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14771 ee4ac58c-ac51-4696-9907-e4b3aa274f04

4cc4b990

update · 42cdbf23

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14770 ee4ac58c-ac51-4696-9907-e4b3aa274f04

42cdbf23

Sep 21, 2010

add main · 03100fae

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14762 ee4ac58c-ac51-4696-9907-e4b3aa274f04

03100fae

Sep 19, 2010

changes for INDEXED_FASTA_FORMAT · d9647d6c

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14754 ee4ac58c-ac51-4696-9907-e4b3aa274f04

d9647d6c

changes for INDEXED_FASTA_FORMAT · 921482b8

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14753 ee4ac58c-ac51-4696-9907-e4b3aa274f04

921482b8

add INDEXED_FASTA_FORMAT · fe3d961f

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14752 ee4ac58c-ac51-4696-9907-e4b3aa274f04

fe3d961f

add checkbox if IndexFastaStream · 0bf1d833

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14751 ee4ac58c-ac51-4696-9907-e4b3aa274f04

0bf1d833

add method resetScrolls() · 8ae835aa

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14750 ee4ac58c-ac51-4696-9907-e4b3aa274f04

8ae835aa

change fixScrollBar to protected · 3208885e

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14749 ee4ac58c-ac51-4696-9907-e4b3aa274f04

3208885e

Sep 18, 2010

handle indexed fasta · d557ee4f

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14748 ee4ac58c-ac51-4696-9907-e4b3aa274f04

d557ee4f

Sep 09, 2010

update · c98e6b04

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14735 ee4ac58c-ac51-4696-9907-e4b3aa274f04

c98e6b04

fix for snp and coverage plots when zooming in · 24381086

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14734 ee4ac58c-ac51-4696-9907-e4b3aa274f04

24381086

Sep 01, 2010

vcf · 84a84902

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14696 ee4ac58c-ac51-4696-9907-e4b3aa274f04

84a84902

vcf · df618e8e

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14695 ee4ac58c-ac51-4696-9907-e4b3aa274f04

df618e8e

vcf · a02b6355

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14694 ee4ac58c-ac51-4696-9907-e4b3aa274f04

a02b6355

fix for showing new stop codons · cf32b992

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14691 ee4ac58c-ac51-4696-9907-e4b3aa274f04

cf32b992

update · 2d601075

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14690 ee4ac58c-ac51-4696-9907-e4b3aa274f04

2d601075

Aug 27, 2010

give a warning if the reference feature names do not match the contig names in the VCF · 48a672d8
tjc authored 14 years ago
```
git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14677 ee4ac58c-ac51-4696-9907-e4b3aa274f04
```
48a672d8

changes for combining reference contigs in a vcf · 4cb2a65d

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14676 ee4ac58c-ac51-4696-9907-e4b3aa274f04

4cb2a65d

Aug 19, 2010

update · eca39880

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14601 ee4ac58c-ac51-4696-9907-e4b3aa274f04

eca39880

option to turn off hyperlinks · 529e9d60

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14599 ee4ac58c-ac51-4696-9907-e4b3aa274f04

529e9d60

turn hyperlink styles off in history as this causes problems · 6227f5d5

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14598 ee4ac58c-ac51-4696-9907-e4b3aa274f04

6227f5d5

Aug 18, 2010
- fix to display is_partial options when the gene is created within the current session · c9794938
  tjc authored 14 years ago
  
  git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@14586 ee4ac58c-ac51-4696-9907-e4b3aa274f04
  c9794938

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